Job ID = 2640881 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 25,416,321 reads read : 50,832,642 reads written : 25,416,321 reads 0-length : 25,416,321 rm: cannot remove ‘[DSE]RR*’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:07 25416321 reads; of these: 25416321 (100.00%) were unpaired; of these: 3384571 (13.32%) aligned 0 times 19440851 (76.49%) aligned exactly 1 time 2590899 (10.19%) aligned >1 times 86.68% overall alignment rate Time searching: 00:04:07 Overall time: 00:04:07 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 10130577 / 22031750 = 0.4598 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:52:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 24 Aug 2019 19:52:45: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:52:45: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:52:52: 1000000 INFO @ Sat, 24 Aug 2019 19:52:58: 2000000 INFO @ Sat, 24 Aug 2019 19:53:05: 3000000 INFO @ Sat, 24 Aug 2019 19:53:11: 4000000 INFO @ Sat, 24 Aug 2019 19:53:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 24 Aug 2019 19:53:15: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:53:15: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:53:18: 5000000 INFO @ Sat, 24 Aug 2019 19:53:24: 6000000 INFO @ Sat, 24 Aug 2019 19:53:25: 1000000 INFO @ Sat, 24 Aug 2019 19:53:31: 7000000 INFO @ Sat, 24 Aug 2019 19:53:33: 2000000 INFO @ Sat, 24 Aug 2019 19:53:38: 8000000 INFO @ Sat, 24 Aug 2019 19:53:42: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:53:44: 9000000 INFO @ Sat, 24 Aug 2019 19:53:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 24 Aug 2019 19:53:45: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:53:45: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:53:50: 4000000 INFO @ Sat, 24 Aug 2019 19:53:51: 10000000 INFO @ Sat, 24 Aug 2019 19:53:53: 1000000 INFO @ Sat, 24 Aug 2019 19:53:57: 11000000 INFO @ Sat, 24 Aug 2019 19:53:59: 5000000 INFO @ Sat, 24 Aug 2019 19:54:02: 2000000 INFO @ Sat, 24 Aug 2019 19:54:03: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:54:03: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:54:03: #1 total tags in treatment: 11901173 INFO @ Sat, 24 Aug 2019 19:54:03: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:54:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:54:04: #1 tags after filtering in treatment: 11901173 INFO @ Sat, 24 Aug 2019 19:54:04: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:54:04: #1 finished! INFO @ Sat, 24 Aug 2019 19:54:04: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:54:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:54:04: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:54:04: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 24 Aug 2019 19:54:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:54:08: 6000000 INFO @ Sat, 24 Aug 2019 19:54:10: 3000000 INFO @ Sat, 24 Aug 2019 19:54:16: 7000000 INFO @ Sat, 24 Aug 2019 19:54:18: 4000000 INFO @ Sat, 24 Aug 2019 19:54:25: 8000000 INFO @ Sat, 24 Aug 2019 19:54:27: 5000000 INFO @ Sat, 24 Aug 2019 19:54:33: 9000000 INFO @ Sat, 24 Aug 2019 19:54:35: 6000000 INFO @ Sat, 24 Aug 2019 19:54:42: 10000000 INFO @ Sat, 24 Aug 2019 19:54:43: 7000000 INFO @ Sat, 24 Aug 2019 19:54:51: 11000000 INFO @ Sat, 24 Aug 2019 19:54:51: 8000000 INFO @ Sat, 24 Aug 2019 19:54:58: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:54:58: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:54:58: #1 total tags in treatment: 11901173 INFO @ Sat, 24 Aug 2019 19:54:58: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:54:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:54:58: #1 tags after filtering in treatment: 11901173 INFO @ Sat, 24 Aug 2019 19:54:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:54:58: #1 finished! INFO @ Sat, 24 Aug 2019 19:54:58: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:54:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:54:59: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:54:59: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 24 Aug 2019 19:54:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:55:00: 9000000 INFO @ Sat, 24 Aug 2019 19:55:08: 10000000 INFO @ Sat, 24 Aug 2019 19:55:16: 11000000 INFO @ Sat, 24 Aug 2019 19:55:23: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:55:23: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:55:23: #1 total tags in treatment: 11901173 INFO @ Sat, 24 Aug 2019 19:55:23: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:55:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:55:23: #1 tags after filtering in treatment: 11901173 INFO @ Sat, 24 Aug 2019 19:55:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:55:23: #1 finished! INFO @ Sat, 24 Aug 2019 19:55:23: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:55:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:55:24: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:55:24: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 24 Aug 2019 19:55:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944372/SRX3944372.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。